5CUW | pdb_00005cuw

Crystal structure of Sortase E1 from Streptomyces coelicolor with tripeptide in the active site

PDB DOI: https://doi.org/10.2210/pdb5CUW/pdb

Classification: MEMBRANE PROTEIN
Organism(s): Streptomyces coelicolor A3(2)
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-07-25 Released: 2016-08-17
Deposition Author(s): Kattke, M.D., Cascio, D., Sawaya, M.R., Clubb, R.T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.89 Å
R-Value Free:
0.227 (Depositor), 0.229 (DCC)
R-Value Work:
0.200 (Depositor), 0.204 (DCC)
R-Value Observed:
0.201 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of the first class E sortase transpeptidase, SrtE1 from Streptomyces coelicolor

Kattke, M.D., Cascio, D., Sawaya, M.R., Elliot, M.A., Clubb, R.T.

To be published.

Macromolecule Content

Total Structure Weight: 21.34 kDa
Atom Count: 1,267
Modeled Residue Count: 162
Deposited Residue Count: 195
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SrtE1	A	195	Streptomyces coelicolor A3(2)	Mutation(s): 0 Gene Names: SCO3850 EC: 3.4.22.70
UniProt
Find proteins for Q9XA14 (Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)) Explore Q9XA14 Go to UniProtKB: Q9XA14
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9XA14
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.89 Å
R-Value Free: 0.227 (Depositor), 0.229 (DCC)
R-Value Work: 0.200 (Depositor), 0.204 (DCC)
R-Value Observed: 0.201 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.11	α = 90
b = 104.3	β = 90
c = 79.02	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-08-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-08-17
Type: Initial release
Version 1.1: 2024-03-06
Changes: Data collection, Database references, Derived calculations

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.